Shuttleworthella satelles (DSM 14600, CCUG 45864, CIP 107710)

Name: Shuttleworthella satelles (DSM 14600, CCUG 45864, CIP 107710)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6370

Type strain

Culture col. no. DSM 14600 CCUG 45864 CIP 107710 ATCC BAA-774 VPI D143K-13

NCBI tax ID(s) 177972

Special Collections DSMZ CCUG CIP

History <- J. Downes; <- A. C. R. Tanner; <- Virginia Polytechnical Institute and State University (VPI), Blacksburg, V., USA; VPI D143K-13 CIP <- 2002, CCUG <- 2001, J. Downes, Guys Hosp., London, UK

Links

Shuttleworthella satelles DSM 14600 is an anaerobe, Gram-positive, rod-shaped bacterium that was isolated from human periodontal pocket.

Gram-positive rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 100953

CCUG 45864,DSM 14600,CIP 107710,ATCC BAA-774

@ref 20215

Last LPSN update 2026-02-09 11:19:12

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Shuttleworthella

Species Shuttleworthella satelles

Full scientific name Shuttleworthella satelles (Downes et al. 2002) Deshmukh and Oren 2024

Synonyms (1)

Shuttleworthia satelles

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
122493	positive	rod-shaped
125438				90.789

Colony morphology

@ref	Incubation period
56954	2-3 days
122493

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5402	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)	Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
37536	MEDIUM 6 - Columbia agar with 10 % horse blood		Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
122493	CIP Medium 6	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5402	positive	growth	37
37536	positive	growth	37
56954	positive	growth	35

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
5402	anaerobe
56954	anaerobe
122493	anaerobe
125438	anaerobe	93.766
125439	anaerobe	99.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
122493	17057 ChEBI	cellobiose	-	degradation
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
122493	17108 ChEBI	D-arabinose	+	degradation
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
122493	15824 ChEBI	D-fructose	+	degradation
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
122493	17634 ChEBI	D-glucose	-	degradation
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
122493	65327 ChEBI	D-xylose	+	degradation
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
122493	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
122493	17716 ChEBI	lactose	+	degradation
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
122493	17306 ChEBI	maltose	+	degradation
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
122493	17632 ChEBI	nitrate	-	reduction
122493	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
122493	17814 ChEBI	salicin	+	degradation
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
122493	17992 ChEBI	sucrose	+	degradation
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122493	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
122493	amylase	+
68382	beta-galactosidase	-	3.2.1.23	from API zym
122493	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	+	3.2.1.31	from API zym
122493	caseinase	-	3.4.21.50
122493	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
122493	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
122493	gelatinase	-
122493	lecithinase	-
68382	leucine arylamidase	-	3.4.11.1	from API zym
122493	lipase	-
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
122493	oxidase	-
122493	protease	-
68382	trypsin	-	3.4.21.4	from API zym
122493	tween esterase	-
122493	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	gluconeogenesis	100	8 of 8
66794	L-lactaldehyde degradation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	starch degradation	100	10 of 10
66794	palmitate biosynthesis	100	22 of 22
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	cellulose degradation	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	glycogen metabolism	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	photosynthesis	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	ppGpp biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	degradation of sugar alcohols	75	12 of 16
66794	metabolism of disaccharids	72.73	8 of 11
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	acetoin degradation	66.67	2 of 3
66794	pyrimidine metabolism	66.67	30 of 45
66794	serine metabolism	66.67	6 of 9
66794	methane metabolism	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	degradation of hexoses	66.67	12 of 18
66794	alanine metabolism	62.07	18 of 29
66794	urea cycle	61.54	8 of 13
66794	NAD metabolism	61.11	11 of 18
66794	glutamate and glutamine metabolism	60.71	17 of 28
66794	purine metabolism	60.64	57 of 94
66794	hydrogen production	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	methionine metabolism	57.69	15 of 26
66794	citric acid cycle	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	oxidative phosphorylation	56.04	51 of 91
66794	cysteine metabolism	55.56	10 of 18
66794	non-pathway related	55.26	21 of 38
66794	pentose phosphate pathway	54.55	6 of 11
66794	degradation of sugar acids	52	13 of 25
66794	histidine metabolism	51.72	15 of 29
66794	sulfopterin metabolism	50	2 of 4
66794	lactate fermentation	50	2 of 4
66794	suberin monomers biosynthesis	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	Entner Doudoroff pathway	50	5 of 10
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	propionate fermentation	50	5 of 10
66794	tetrahydrofolate metabolism	50	7 of 14
66794	butanoate fermentation	50	2 of 4
66794	toluene degradation	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	degradation of pentoses	50	14 of 28
66794	selenocysteine biosynthesis	50	3 of 6
66794	acetate fermentation	50	2 of 4
66794	lipid metabolism	48.39	15 of 31
66794	tryptophan metabolism	47.37	18 of 38
66794	leucine metabolism	46.15	6 of 13
66794	isoprenoid biosynthesis	46.15	12 of 26
66794	proline metabolism	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	glutathione metabolism	42.86	6 of 14
66794	arginine metabolism	41.67	10 of 24
66794	arachidonate biosynthesis	40	2 of 5
66794	methylglyoxal degradation	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	flavin biosynthesis	40	6 of 15
66794	vitamin B1 metabolism	38.46	5 of 13
66794	sulfate reduction	38.46	5 of 13
66794	lysine metabolism	38.1	16 of 42
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	37.5	3 of 8
66794	d-xylose degradation	36.36	4 of 11
66794	tyrosine metabolism	35.71	5 of 14
66794	lipid A biosynthesis	33.33	3 of 9
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	glycine metabolism	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	heme metabolism	28.57	4 of 14
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	degradation of aromatic, nitrogen containing compounds	25	3 of 12
66794	biotin biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	CMP-KDO biosynthesis	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	ascorbate metabolism	22.73	5 of 22
66794	arachidonic acid metabolism	22.22	4 of 18
66794	polyamine pathway	21.74	5 of 23

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
122493	-	-	+	+	-	-	-	-	-	-	-	+	-	-	+	+	+	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
122493	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Periodontal pocket

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
5402	human periodontal pocket			USA	USA	North America
56954	Human subgingival periodontal pocket,14 year old	1989-01-01	VPI	USA	USA	North America
122493	Human, Oral cavity

Taxonmaps

69479

Global distribution of 16S sequence AF399956 (>99% sequence identity) for Shuttleworthia satelles subclade from Microbeatlas

Aquatic Samples	329
Soil Samples	272
Animal Samples	31590
Plant Samples	121
Total Samples	32312

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5402	2	Risk group (German classification) According to TRBA 466
122493	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM16011v1 assembly for Shuttleworthella satelles DSM 14600	scaffold	GCA_000160115	626523.3	643886070	626523	75.21

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5402	Shuttleworthia satelles 16S ribosomal RNA gene, partial sequence	AF399956	1456		626523

GC content

@ref	GC-content (mol%)	Method
5402	51	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Shuttleworthia satelles DSM 14600
NCBI: GCA_000160115

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	81.20	no
125439	motility	BacteriaNetⓘ	yes	76.70	no
125439	gram_stain	BacteriaNetⓘ	positive	72.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Shuttleworthia satelles DSM 14600 DSM 14600
NCBI: GCA_000160115.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	77.40	no
125438	anaerobic	anaerobicⓘ	yes	93.77	no
125438	aerobic	aerobicⓘ	no	98.08	no
125438	spore-forming	spore-formingⓘ	no	74.18	no
125438	thermophilic	thermophileⓘ	no	89.98	yes
125438	flagellated	motile2+ⓘ	no	90.79	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Fecal microbiota transplantation improves bile acid malabsorption in patients with inflammatory bowel disease: results of microbiota and metabolites from two cohort studies.	Lu G, Zhang S, Wang R, Wu X, Chen Y, Wen Q, Cui B, Zhang F, Li P.	BMC Med	10.1186/s12916-025-04353-y	2025
	A Systematic Approach to Discover New Natural Product Scaffolds Using Database-Derived Relative Mass Spectral Defects and Molecular Networking.	Cho HM, Boccia E, Rajwani R, O'Connor RD, Boshoff H, Barry C, Bifulco G, Bewley CA.	JACS Au	10.1021/jacsau.4c00889	2025
Transcriptome	Gene expression of bacterial collagenolytic proteases in root caries.	Dame-Teixeira N, Parolo CCF, Maltz M, Rup AG, Devine DA, Do T.	J Oral Microbiol	10.1080/20002297.2018.1424475	2018
Genetics	A phylogenomic view of ecological specialization in the Lachnospiraceae, a family of digestive tract-associated bacteria.	Meehan CJ, Beiko RG.	Genome Biol Evol	10.1093/gbe/evu050	2014
Metabolism	Biological systems discovery in silico: radical S-adenosylmethionine protein families and their target peptides for posttranslational modification.	Haft DH, Basu MK.	J Bacteriol	10.1128/jb.00040-11	2011
Metabolism	A metagenomic beta-glucuronidase uncovers a core adaptive function of the human intestinal microbiome.	Gloux K, Berteau O, El Oumami H, Beguet F, Leclerc M, Dore J.	Proc Natl Acad Sci U S A	10.1073/pnas.1000066107	2011
	Proposal of Shuttleworthella gen. nov. and Nostocoides gen. nov. as replacement names for the illegitimate prokaryotic generic names Shuttleworthia and Tetrasphaera, respectively.	Deshmukh UB, Oren A.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006318	2024
	Association between Oral Microbiome and Gastroesophageal Reflux Severity.	Power DJ, Ho V, Zhou J.	J Clin Med	10.3390/jcm13154479	2024
	Metabolomic profiles of obesity and subgingival microbiome in periodontally healthy individuals: A cross-sectional study.	Khocht A, Paster B, Lenoir L, Irani C, Fraser G.	J Clin Periodontol	10.1111/jcpe.13860	2023
Genetics	Species-Specific Analysis of Bacterial Vaginosis-Associated Bacteria.	Osei Sekyere J, Oyenihi AB, Trama J, Adelson ME.	Microbiol Spectr	10.1128/spectrum.04676-22	2023
	Impact of Chemotherapy Alone and in Combination with Immunotherapy on Oral Microbiota in Cancer Patients-A Pilot Study.	Padure A, Talpos-Niculescu IC, Ciordas PD, Romanescu M, Chis AR, Rusu LC, Sirbu IO.	Microorganisms	10.3390/microorganisms13071565	2025
	The Impact of Bacterial-Fungal Interactions on Childhood Caries Pathogenesis.	Huang S, Wang H, Tian J, Qin M, Gao R, Zhao B, Wang J, Wu H, Xu H.	Pathogens	10.3390/pathogens14101033	2025
	Exploring Relationships Within the Microbiome of Root Canal Infections and the Influence of Associated Clinical Parameters.	Mominkhan D, Brito LCN, Yakubu AR, Larson E, Martin L, Patel M, Tavares WLF, Ribeiro-Sobrinho A, Teles F.	Int Endod J	10.1111/iej.70011	2025
	An Autoimmunogenic and Proinflammatory Profile Defined by the Gut Microbiota of Patients With Untreated Systemic Lupus Erythematosus.	Chen BD, Jia XM, Xu JY, Zhao LD, Ji JY, Wu BX, Ma Y, Li H, Zuo XX, Pan WY, Wang XH, Ye S, Tsokos GC, Wang J, Zhang X.	Arthritis Rheumatol	10.1002/art.41511	2021
	Succession of the multi-site microbiome along pancreatic ductal adenocarcinoma tumorigenesis.	Zhu Y, Liang X, Zhi M, Li L, Zhang G, Chen C, Wang L, Wang P, Zhong N, Feng Q, Li Z.	Front Immunol	10.3389/fimmu.2024.1487242	2024
	Causal Relationship Between Sjögren's Syndrome and Gut Microbiota: A Two-Sample Mendelian Randomization Study.	Wang X, Liu M, Xia W.	Biomedicines	10.3390/biomedicines12102378	2024
Genetics	Novel potential biomarkers for predicting childhood caries via metagenomic analysis.	Zhang H, Zheng X, Huang Y, Zou Y, Zhang T, Repo MA, Yin M, You Y, Jie Z, Xu WA.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1522970	2025
Transcriptome	Impact of surface characteristics on the peri-implant microbiome in health and disease.	Sinjab K, Sawant S, Ou A, Fenno JC, Wang HL, Kumar P.	J Periodontol	10.1002/jper.23-0205	2024
Genetics	Comparative Metagenome-Assembled Genome Analysis of "Candidatus Lachnocurva vaginae", Formerly Known as Bacterial Vaginosis-Associated Bacterium-1 (BVAB1).	Holm JB, France MT, Ma B, McComb E, Robinson CK, Mehta A, Tallon LJ, Brotman RM, Ravel J.	Front Cell Infect Microbiol	10.3389/fcimb.2020.00117	2020
Enzymology	Salivary microbiota and caries occurrence in Mutans Streptococci-positive school children.	ElSalhy M, Soderling E, Honkala E, Fontana M, Flannagan S, Kokaras A, Paster BJ, Varghese A, Honkala S.	Eur J Paediatr Dent		2016
	Characteristics of Vaginal Microbiome in Reproductive-Age Females with HPV Infection in Xinjiang, China.	Xia Y, Feng Y, Qin T, Zhao X, Lu J, Ma C.	Evid Based Complement Alternat Med	10.1155/2022/7332628	2022
Genetics	Outgrowth of Escherichia is susceptible to aggravation of systemic lupus erythematosus.	Gui L, Zuo X, Feng J, Wang M, Chen Z, Sun Y, Qi J, Chen Z, Pathak JL, Zhang Y, Cui C, Zhang P, Guo X, Lv Q, Zhang X, Zhang Y, Gu J, Lin Z.	Arthritis Res Ther	10.1186/s13075-024-03413-7	2024
	Association of Coffee and Tea Intake with the Oral Microbiome: Results from a Large Cross-Sectional Study.	Peters BA, McCullough ML, Purdue MP, Freedman ND, Um CY, Gapstur SM, Hayes RB, Ahn J.	Cancer Epidemiol Biomarkers Prev	10.1158/1055-9965.epi-18-0184	2018
Metabolism	Isomaltulose Exhibits Prebiotic Activity, and Modulates Gut Microbiota, the Production of Short Chain Fatty Acids, and Secondary Bile Acids in Rats.	Yang ZD, Guo YS, Huang JS, Gao YF, Peng F, Xu RY, Su HH, Zhang PJ.	Molecules	10.3390/molecules26092464	2021
	Characterizing the microbiota of cleft lip and palate patients: a comprehensive review.	Gershater E, Liu Y, Xue B, Shin MK, Koo H, Zheng Z, Li C.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1159455	2023
	A Positive or Negative Connection of Diabetes Mellitus to the Oral Microbiota.	Al-Janabi AAHS.	Eurasian J Med	10.5152/eurasianjmed.2023.21164	2023
Enzymology	Oral Cyanobacteria and Hepatocellular Carcinoma.	Hernandez BY, Zhu X, Risch HA, Lu L, Ma X, Irwin ML, Lim JK, Taddei TH, Pawlish KS, Stroup AM, Brown R, Wang Z, Wong LL, Yu H.	Cancer Epidemiol Biomarkers Prev	10.1158/1055-9965.epi-21-0804	2022
Genetics	Oral Microbiome Alterations Associated with Early Childhood Caries Highlight the Importance of Carbohydrate Metabolic Activities.	Wang Y, Wang S, Wu C, Chen X, Duan Z, Xu Q, Jiang W, Xu L, Wang T, Su L, Wang Y, Chen Y, Zhang J, Huang Y, Tong S, Zhou C, Deng S, Qin N.	mSystems	10.1128/msystems.00450-19	2019
	Oral and gastric microbiome in relation to gastric intestinal metaplasia.	Wu F, Yang L, Hao Y, Zhou B, Hu J, Yang Y, Bedi S, Sanichar NG, Cheng C, Perez-Perez G, Tseng W, Tseng W, Tseng M, Francois F, Khan AR, Li Y, Blaser MJ, Shu XO, Long J, Li H, Pei Z, Chen Y.	Int J Cancer	10.1002/ijc.33848	2022
	Molecular Identification of Cervical Microbes in HIV-Negative and HIV-Positive Women in an African Setting Using a Customized Bacterial Vaginosis Microbial DNA Quantitative PCR (qPCR) Array.	Taku O, Onywera H, Mbulawa ZZA, Businge CB, Meiring TL, Williamson AL.	Microbiol Spectr	10.1128/spectrum.02229-21	2022
	Amixicile depletes the ex vivo periodontal microbiome of anaerobic bacteria.	Gui Q, Ramsey KW, Hoffman PS, Lewis JP.	J Oral Biosci	10.1016/j.job.2020.03.004	2020
Phylogeny	Bacterial examination of endodontic infections by clonal analysis in concert with denaturing high-performance liquid chromatography.	Jacinto RC, Gomes BP, Desai M, Rajendram D, Shah HN.	Oral Microbiol Immunol	10.1111/j.1399-302x.2007.00378.x	2007
Metabolism	Glucose metabolism and glycosylation link the gut microbiota to autoimmune diseases.	Wang L, Xu H, Yang H, Zhou J, Zhao L, Zhang F.	Front Immunol	10.3389/fimmu.2022.952398	2022
	The bacterial microbiome and metabolome in caries progression and arrest.	da Costa Rosa T, de Almeida Neves A, Azcarate-Peril MA, Divaris K, Wu D, Cho H, Moss K, Paster BJ, Chen T, B Freitas-Fernandes L, Fidalgo TKS, Tadeu Lopes R, Valente AP, R Arnold R, de Aguiar Ribeiro A.	J Oral Microbiol	10.1080/20002297.2021.1886748	2021
	Components of a Neanderthal gut microbiome recovered from fecal sediments from El Salt.	Rampelli S, Turroni S, Mallol C, Hernandez C, Galvan B, Sistiaga A, Biagi E, Astolfi A, Brigidi P, Benazzi S, Lewis CM, Warinner C, Hofman CA, Schnorr SL, Candela M.	Commun Biol	10.1038/s42003-021-01689-y	2021
	Alteration of salivary microbiome in periodontitis with or without type-2 diabetes mellitus and metformin treatment.	Sun X, Li M, Xia L, Fang Z, Yu S, Gao J, Feng Q, Yang P.	Sci Rep	10.1038/s41598-020-72035-1	2020
Phylogeny	Dynamic Alterations in Salivary Microbiota Related to Dental Caries and Age in Preschool Children With Deciduous Dentition: A 2-Year Follow-Up Study.	Xu L, Chen X, Wang Y, Jiang W, Wang S, Ling Z, Chen H.	Front Physiol	10.3389/fphys.2018.00342	2018
	Cervical cancer stem cells and other leading factors associated with cervical cancer development.	Mendoza-Almanza G, Ortiz-Sanchez E, Rocha-Zavaleta L, Rivas-Santiago C, Esparza-Ibarra E, Olmos J.	Oncol Lett	10.3892/ol.2019.10718	2019
Phylogeny	Species Level Description of the Human Ileal Bacterial Microbiota.	Villmones HC, Haug ES, Ulvestad E, Grude N, Stenstad T, Halland A, Kommedal O.	Sci Rep	10.1038/s41598-018-23198-5	2018
	Functional dysbiosis within dental plaque microbiota in cleft lip and palate patients.	Funahashi K, Shiba T, Watanabe T, Muramoto K, Takeuchi Y, Ogawa T, Izumi Y, Sekizaki T, Nakagawa I, Moriyama K.	Prog Orthod	10.1186/s40510-019-0265-1	2019
	Cervical Microbiome and Cytokine Profile at Various Stages of Cervical Cancer: A Pilot Study.	Audirac-Chalifour A, Torres-Poveda K, Bahena-Roman M, Tellez-Sosa J, Martinez-Barnetche J, Cortina-Ceballos B, Lopez-Estrada G, Delgado-Romero K, Burguete-Garcia AI, Cantu D, Garcia-Carranca A, Madrid-Marina V.	PLoS One	10.1371/journal.pone.0153274	2016
	Diversity of vaginal microbiome and metabolome during genital infections.	Ceccarani C, Foschi C, Parolin C, D'Antuono A, Gaspari V, Consolandi C, Laghi L, Camboni T, Vitali B, Severgnini M, Marangoni A.	Sci Rep	10.1038/s41598-019-50410-x	2019
Metabolism	Microbial Ecological Mechanism for Long-Term Production of High Concentrations of n-Caproate via Lactate-Driven Chain Elongation.	Zhu X, Feng X, Liang C, Li J, Jia J, Feng L, Tao Y, Chen Y.	Appl Environ Microbiol	10.1128/aem.03075-20	2021
	Sex-specific differences in the salivary microbiome of caries-active children.	Ortiz S, Herrman E, Lyashenko C, Purcell A, Raslan K, Khor B, Snow M, Forsyth A, Choi D, Maier T, Machida CA.	J Oral Microbiol	10.1080/20002297.2019.1653124	2019
	Limosilactobacillus reuteri in immunomodulation: molecular mechanisms and potential applications.	Luo Z, Chen A, Xie A, Liu X, Jiang S, Yu R.	Front Immunol	10.3389/fimmu.2023.1228754	2023
Phylogeny	Cervicovaginal Fungi and Bacteria Associated With Cervical Intraepithelial Neoplasia and High-Risk Human Papillomavirus Infections in a Hispanic Population.	Godoy-Vitorino F, Romaguera J, Zhao C, Vargas-Robles D, Ortiz-Morales G, Vazquez-Sanchez F, Sanchez-Vazquez M, de la Garza-Casillas M, Martinez-Ferrer M, White JR, Bittinger K, Dominguez-Bello MG, Blaser MJ.	Front Microbiol	10.3389/fmicb.2018.02533	2018
	Extensive description and comparison of human supra-gingival microbiome in root caries and health.	Chen L, Qin B, Du M, Zhong H, Xu Q, Li Y, Zhang P, Fan M.	PLoS One	10.1371/journal.pone.0117064	2015
Genetics	Comparative metagenomics reveals taxonomically idiosyncratic yet functionally congruent communities in periodontitis.	Dabdoub SM, Ganesan SM, Kumar PS.	Sci Rep	10.1038/srep38993	2016
Phylogeny	Comparisons of subgingival microbial profiles of refractory periodontitis, severe periodontitis, and periodontal health using the human oral microbe identification microarray.	Colombo AP, Boches SK, Cotton SL, Goodson JM, Kent R, Haffajee AD, Socransky SS, Hasturk H, Van Dyke TE, Dewhirst F, Paster BJ.	J Periodontol	10.1902/jop.2009.090185	2009
	Subgingival microbial profiles of Sudanese patients with aggressive periodontitis.	Elabdeen HR, Mustafa M, Hasturk H, Klepac-Ceraj V, Ali RW, Paster BJ, Van Dyke T, Bolstad AI.	J Periodontal Res	10.1111/jre.12250	2015
Phylogeny	Impact of periodontal therapy on the subgingival microbiota of severe periodontitis: comparison between good responders and individuals with refractory periodontitis using the human oral microbe identification microarray.	Colombo AP, Bennet S, Cotton SL, Goodson JM, Kent R, Haffajee AD, Socransky SS, Hasturk H, Van Dyke TE, Dewhirst FE, Paster BJ.	J Periodontol	10.1902/jop.2012.110566	2012
	Bacterial profile of dentine caries and the impact of pH on bacterial population diversity.	Kianoush N, Adler CJ, Nguyen KA, Browne GV, Simonian M, Hunter N.	PLoS One	10.1371/journal.pone.0092940	2014
	Axenic culture of a candidate division TM7 bacterium from the human oral cavity and biofilm interactions with other oral bacteria.	Soro V, Dutton LC, Sprague SV, Nobbs AH, Ireland AJ, Sandy JR, Jepson MA, Micaroni M, Splatt PR, Dymock D, Jenkinson HF.	Appl Environ Microbiol	10.1128/aem.01827-14	2014
	A reproducible oral microcosm biofilm model for testing dental materials.	Rudney JD, Chen R, Lenton P, Li J, Li Y, Jones RS, Reilly C, Fok AS, Aparicio C.	J Appl Microbiol	10.1111/j.1365-2672.2012.05439.x	2012
Phylogeny	Specified species in gingival crevicular fluid predict bacterial diversity.	Asikainen S, Dogan B, Turgut Z, Paster BJ, Bodur A, Oscarsson J.	PLoS One	10.1371/journal.pone.0013589	2010
Enzymology	Medium-Chain Fatty Acid Synthesis by "Candidatus Weimeria bifida" gen. nov., sp. nov., and "Candidatus Pseudoramibacter fermentans" sp. nov.	Scarborough MJ, Myers KS, Donohue TJ, Noguera DR.	Appl Environ Microbiol	10.1128/aem.02242-19	2020
Phylogeny	Shuttleworthia satelles gen. nov., sp. nov., isolated from the human oral cavity.	Downes J, Munson MA, Radford DR, Spratt DA, Wade WG	Int J Syst Evol Microbiol	10.1099/00207713-52-5-1469	2002

References

#5402	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14600
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#37536	; Curators of the CIP;
#56954	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 45864
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#122493	Collection of Institut Pasteur ; Curators of the CIP; CIP 107710
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Shuttleworthella satelles (DSM 14600, CCUG 45864, CIP 107710)

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